AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0467430


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0467430 MtrunA17_Chr3g0121841 100.000 132 0 0 1 132 425 556 7.12e-83 264
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0467430 AT2G31970.1 50.382 131 65 0 2 132 426 556 3.86e-32 119

Find 14 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTCTTATGAAGGGAGATT+TGG 0.290588 3_3:-68724481 Msa0467430:CDS
AGACGAGAGAGAAAGAGAAT+TGG 0.393062 3_3:-68724762 Msa0467430:intron
ATGCTTGCAGCAAATTCGTC+TGG 0.485767 3_3:-68724652 Msa0467430:intron
ACTTAAATGCAAATGAAAGT+TGG 0.485931 3_3:-68724992 Msa0467430:CDS
TACAATGGCTACTGATTCAA+AGG 0.511814 3_3:-68724517 Msa0467430:CDS
ACACTGAACTCAAGATGGCA+TGG 0.552021 3_3:-68725022 Msa0467430:exon
AAATAACACTGAACTCAAGA+TGG 0.563459 3_3:-68725027 Msa0467430:exon
CGAAAATAAAGCCCTTAATG+TGG 0.575676 3_3:-68724574 Msa0467430:CDS
TGCAGCAAATTCGTCTGGAG+GGG 0.586209 3_3:-68724647 Msa0467430:intron
TTGCAGCAAATTCGTCTGGA+GGG 0.589663 3_3:-68724648 Msa0467430:intron
CACTGAACTCAAGATGGCAT+GGG 0.592682 3_3:-68725021 Msa0467430:exon
CAATCGAGAGATGCTTACAA+TGG 0.621502 3_3:-68724532 Msa0467430:CDS
CTTGCAGCAAATTCGTCTGG+AGG 0.623052 3_3:-68724649 Msa0467430:intron
ACAAACTAAGAGAGAGCACA+AGG 0.666140 3_3:-68724949 Msa0467430:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAGTAATTTGACAAGAAAT+GGG + chr3_3:68724585-68724604 None:intergenic 20.0%
!! AGAAAAATTATCTCTTATGA+AGG - chr3_3:68725001-68725020 Msa0467430:CDS 20.0%
!! GAAAAATTATCTCTTATGAA+GGG - chr3_3:68725002-68725021 Msa0467430:CDS 20.0%
! ACTTAAATGCAAATGAAAGT+TGG - chr3_3:68724499-68724518 Msa0467430:CDS 25.0%
! CATAGTAATTTGACAAGAAA+TGG + chr3_3:68724586-68724605 None:intergenic 25.0%
AAATAACACTGAACTCAAGA+TGG - chr3_3:68724464-68724483 Msa0467430:CDS 30.0%
! CAACTTCAATTTTAGACTTC+TGG - chr3_3:68724790-68724809 Msa0467430:CDS 30.0%
! AATCTTTTGCTCCACATTAA+GGG + chr3_3:68724931-68724950 None:intergenic 30.0%
! TAATCTTTTGCTCCACATTA+AGG + chr3_3:68724932-68724951 None:intergenic 30.0%
TAATACGTTATTGTGCATGC+AGG - chr3_3:68724621-68724640 Msa0467430:CDS 35.0%
CGAAAATAAAGCCCTTAATG+TGG - chr3_3:68724917-68724936 Msa0467430:intron 35.0%
!! TACAATGGCTACTGATTCAA+AGG - chr3_3:68724974-68724993 Msa0467430:CDS 35.0%
ATCTCTTATGAAGGGAGATT+TGG - chr3_3:68725010-68725029 Msa0467430:CDS 35.0%
! ACAAACTAAGAGAGAGCACA+AGG - chr3_3:68724542-68724561 Msa0467430:CDS 40.0%
AGACGAGAGAGAAAGAGAAT+TGG - chr3_3:68724729-68724748 Msa0467430:intron 40.0%
!! AGTTACTCTTCGGTGTTGTT+TGG - chr3_3:68724760-68724779 Msa0467430:intron 40.0%
CAATCGAGAGATGCTTACAA+TGG - chr3_3:68724959-68724978 Msa0467430:CDS 40.0%
ACACTGAACTCAAGATGGCA+TGG - chr3_3:68724469-68724488 Msa0467430:CDS 45.0%
CACTGAACTCAAGATGGCAT+GGG - chr3_3:68724470-68724489 Msa0467430:CDS 45.0%
GGTGAGTCGAAGTTACTCTT+CGG - chr3_3:68724750-68724769 Msa0467430:intron 45.0%
ATGCTTGCAGCAAATTCGTC+TGG - chr3_3:68724839-68724858 Msa0467430:CDS 45.0%
TTGCAGCAAATTCGTCTGGA+GGG - chr3_3:68724843-68724862 Msa0467430:CDS 45.0%
ACGTTATTGTGCATGCAGGC+TGG - chr3_3:68724625-68724644 Msa0467430:CDS 50.0%
CTTGCAGCAAATTCGTCTGG+AGG - chr3_3:68724842-68724861 Msa0467430:CDS 50.0%
TGCAGCAAATTCGTCTGGAG+GGG - chr3_3:68724844-68724863 Msa0467430:CDS 50.0%
Chromosome Type Strat End Strand Name
chr3_3 gene 68724455 68725058 68724455 ID=Msa0467430;Name=Msa0467430
chr3_3 mRNA 68724455 68725058 68724455 ID=Msa0467430-mRNA-1;Parent=Msa0467430;Name=Msa0467430-mRNA-1;_AED=0.02;_eAED=0.02;_QI=28|1|0.66|1|1|1|3|0|133
chr3_3 exon 68724455 68724664 68724455 ID=Msa0467430-mRNA-1:exon:16067;Parent=Msa0467430-mRNA-1
chr3_3 exon 68724763 68724870 68724763 ID=Msa0467430-mRNA-1:exon:16066;Parent=Msa0467430-mRNA-1
chr3_3 exon 68724950 68725058 68724950 ID=Msa0467430-mRNA-1:exon:16065;Parent=Msa0467430-mRNA-1
chr3_3 five_prime_UTR 68725031 68725058 68725031 ID=Msa0467430-mRNA-1:five_prime_utr;Parent=Msa0467430-mRNA-1
chr3_3 CDS 68724950 68725030 68724950 ID=Msa0467430-mRNA-1:cds;Parent=Msa0467430-mRNA-1
chr3_3 CDS 68724763 68724870 68724763 ID=Msa0467430-mRNA-1:cds;Parent=Msa0467430-mRNA-1
chr3_3 CDS 68724455 68724664 68724455 ID=Msa0467430-mRNA-1:cds;Parent=Msa0467430-mRNA-1
Gene Sequence

>Msa0467430

ATGGCATGGGATTGCTACTTAAATGCAAATGAAAGTTGGCAAAATACTGAAGCTAAAATACAAACTAAGAGAGAGCACAAGGCTGGCATTATAAAGCGCATTGAAGAGAAGAAAAATGAGCTTGAGTCATTCGAACTTGAAATATCTAATATAGATGTTTCTCATTTAGACGAGAGAGAAAGAGAATTGCAAATTCGTCTGGAGGGGAAGATCAAACAACGTGATGAAAGAGAATTTGAACTAAAGAAAAGTGAAATCGAAAATAAAGCCCTTAATGTGGAGCAAAAGATTAGAGCTCTCAATCGAGAGATGCTTACAATGGCTACTGATTCAAAGGAAAGAGAAAAATTATCTCTTATGAAGGGAGATTTGGAGACAAAGAAGAAGCAACATAAAAAT

Protein sequence

>Msa0467430

MAWDCYLNANESWQNTEAKIQTKREHKAGIIKRIEEKKNELESFELEISNIDVSHLDERERELQIRLEGKIKQRDEREFELKKSEIENKALNVEQKIRALNREMLTMATDSKEREKLSLMKGDLETKKKQHKN